Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002719.1 Hibiscus syriacus cultivar Beakdansim tig00005611_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91275
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Found at i:10497 original size:222 final size:222
Alignment explanation
Indices: 10084--10499 Score: 640
Period size: 222 Copynumber: 1.9 Consensus size: 222
10074 AAAAAACTCT
* * *
10084 AGCTAATACAGAAGGCAGACTACGGCACCATAAGAACCGATCCATCACTCTCGGGTCATCTAAAG
1 AGCTAATACAGAAGGCAGACCACAGCACCATAAGAACCGATCCATCACTCTCGGATCATCTAAAG
*
10149 ATTTCAATTTTGAATATGTTGATGGATGTGTAGAAACTGAGACAGCGATACTCTCTGAAGCTGCA
66 ATTTCAATTTTGAATATGTTGATGGATGTGTAGAAACTGAGACAGCGACACTCTCTGAAGCTGCA
* *
10214 GCAGAATCTCTACTGAATAAAGCAGAAAGACAGAAAGAAGAAAATGCTACAAAGATGGTGGAAAT
131 GCAGAATCTCTACGGAATAAAGCAGAAAGACAGAAAGAAGAAAACGCTACAAAGATGGTGGAAAT
10279 GTTCATTGAAAGACCAGAAATACCTCA
196 GTTCATTGAAAGACCAGAAATACCTCA
* * *
10306 AGCTGATACGGAAGGCAGACCACAGCACCATAAGAACCGATCCATCACTCTCGGATCTTCTAAAG
1 AGCTAATACAGAAGGCAGACCACAGCACCATAAGAACCGATCCATCACTCTCGGATCATCTAAAG
*
10371 ATTTCAATTTTGACA-ATGTTGATGGATGTGTGGAAA-TCGAGACAGCGACA-TCATCTGAAGCT
66 ATTTCAATTTTGA-ATATGTTGATGGATGTGTAGAAACT-GAGACAGCGACACTC-TCTGAAGCT
* * * * * *
10433 GCAGCGGAATCTCTACGGAATGAAGCAGCAAGACGGAAAGAAGAAAACGCTACTAAGTTGGTGGA
128 GCAGCAGAATCTCTACGGAATAAAGCAGAAAGACAGAAAGAAGAAAACGCTACAAAGATGGTGGA
10498 AA
193 AA
10500 CTTATGAATG
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
221 3 0.02
222 171 0.98
223 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (222 bp):
AGCTAATACAGAAGGCAGACCACAGCACCATAAGAACCGATCCATCACTCTCGGATCATCTAAAG
ATTTCAATTTTGAATATGTTGATGGATGTGTAGAAACTGAGACAGCGACACTCTCTGAAGCTGCA
GCAGAATCTCTACGGAATAAAGCAGAAAGACAGAAAGAAGAAAACGCTACAAAGATGGTGGAAAT
GTTCATTGAAAGACCAGAAATACCTCA
Found at i:10720 original size:246 final size:246
Alignment explanation
Indices: 10282--10886 Score: 933
Period size: 246 Copynumber: 2.5 Consensus size: 246
10272 TGGAAATGTT
* * *
10282 CATTGAAAGACCAGAAATACCTCAAGCTGATACGGAAGGCAGACCACAGCACCATAAGAACCGAT
1 CATTGAAAGACCAGAAAGACCTCCAGCTGATACAGAAGGCAGACCACAGCACCATAAGAACCGAT
* * *
10347 CCATCACTCTCGGATCTTCTAAAGATTTCAATTTTGACAATGTTGATGGATGTGTGGAAATCGAG
66 CCATCACTCTCGGGTCATCTAAAGATTTCAATTTTGACAATGTTGATGAATGTGTGGAAATCGAG
* * * *
10412 ACAGCGACATCATCTGAAGCTGCAGCGGAATCTCTACGGAATGAAGCAGCAAGACGGAAAGAAGA
131 ACAGCGACATCATATGAAGCTGCAGCAGAATCTCTACGGAATGAAACAGCAAGACAGAAAGAAGA
* ** *
10477 AAACGCTACTAAGTTGGTGGAAACTTATGAATGTTGTGTTGGTGAAATATA
196 AAACGCTACTAAGTTGGTGGAAACTTACGAATGTCATGTTGGTGAAACATA
* * * *
10528 CATTGAAAGAACAGAAAGACTTCCAGCTGATACCGAAGGCAGACCACATCACCATAAGAACCGAT
1 CATTGAAAGACCAGAAAGACCTCCAGCTGATACAGAAGGCAGACCACAGCACCATAAGAACCGAT
*
10593 CCATCACTCTTGGGTCATCTAAAGATTTCAATTTTGACAATGTTGATGAATGTGTGGAAATCGAG
66 CCATCACTCTCGGGTCATCTAAAGATTTCAATTTTGACAATGTTGATGAATGTGTGGAAATCGAG
* *
10658 ACATCGACA-CTGTATGAAGCTGCAGCAGAATCTCTACGGAATGAAACAGCAAGACAGAAAGAAG
131 ACAGCGACATC-ATATGAAGCTGCAGCAGAATCTCTACGGAATGAAACAGCAAGACAGAAAGAAG
10722 AAAACGCTACTAAGTTGGTGGAAACTTACGAATGTCATGTTGGTGAAACATA
195 AAAACGCTACTAAGTTGGTGGAAACTTACGAATGTCATGTTGGTGAAACATA
* * * * * *
10774 CATCGAAACACCAGAAAGGCCTCCAGCCGATACAGAAGGCAGACCACAGCACCACAAGAACCGAA
1 CATTGAAAGACCAGAAAGACCTCCAGCTGATACAGAAGGCAGACCACAGCACCATAAGAACCGAT
* *
10839 CCATCACTCTCGGGTCATCTAAAGATTTCAATTTCGACAATGTCGATG
66 CCATCACTCTCGGGTCATCTAAAGATTTCAATTTTGACAATGTTGATG
10887 GAGGCGATAC
Statistics
Matches: 325, Mismatches: 33, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
245 1 0.00
246 324 1.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (246 bp):
CATTGAAAGACCAGAAAGACCTCCAGCTGATACAGAAGGCAGACCACAGCACCATAAGAACCGAT
CCATCACTCTCGGGTCATCTAAAGATTTCAATTTTGACAATGTTGATGAATGTGTGGAAATCGAG
ACAGCGACATCATATGAAGCTGCAGCAGAATCTCTACGGAATGAAACAGCAAGACAGAAAGAAGA
AAACGCTACTAAGTTGGTGGAAACTTACGAATGTCATGTTGGTGAAACATA
Found at i:10743 original size:468 final size:468
Alignment explanation
Indices: 9863--10745 Score: 1195
Period size: 468 Copynumber: 1.9 Consensus size: 468
9853 AAAACCGCAA
* * * *
9863 CACCATAAGAACATATCCATCACTCTTGGGTCTGCTAAAGAATTCAATTTTGATAACGTTCATGG
1 CACCATAAGAACAGATCCATCACTCTCGGATCTGCTAAAGAATTCAATTTTGACAACGTTCATGG
* * ** *
9928 ATGTGTGGAAGTTGAGACAGGAAGCCTATCCAAAGCCGTGGCAGAATCTCTACGGAATGCAACTG
66 ATGTGTGGAAATCGAGACAGGAAGCCTATCCAAAGCCGCAGCAGAATCTCTACGGAATGCAACAG
* * *
9993 CAAAACAGAAAGGAGAAAACGCTACCAATTTGGTGGAAATTTATGAATGTCGAATTGGTGAAACA
131 CAAAACAGAAAGAAGAAAACGCTACCAAGTTGGTGGAAACTTATGAATGTCGAATTGGTGAAACA
** * * *
10058 TACATCGAAAGAGGAGAAAAAACTCTAGCTAATACAGAAGGCAGACTACGGCACCATAAGAACCG
196 TACATCGAAAGAACAGAAAAAACTCCAGCTAATACAGAAGGCAGACCACAGCACCATAAGAACCG
*
10123 ATCCATCACTCTCGGGTCATCTAAAGATTTCAATTTTGAATATGTTGATGGATGTGTAGAAACTG
261 ATCCATCACTCTCGGGTCATCTAAAGATTTCAATTTTGAATATGTTGATGAATGTGTAGAAACTG
* * *
10188 AGACAGCGATACTCTCTGAAGCTGCAGCAGAATCTCTACTGAATAAAGCAGAAAGACAGAAAGAA
326 AGACAGCGACACTCTATGAAGCTGCAGCAGAATCTCTACGGAATAAAGCAGAAAGACAGAAAGAA
*
10253 GAAAATGCTACAAAGATGGTGGAAATGTTCATTGAAAGACCAGAAATACCTCAAGCTGATACGGA
391 GAAAACGCTACAAAGATGGTGGAAATGTTCATTGAAAGACCAGAAATACCTCAAGCTGATACGGA
10318 AGGCAGACCACAG
456 AGGCAGACCACAG
* * * * *
10331 CACCATAAGAACCGATCCATCACTCTCGGATCTTCTAAAGATTTCAATTTTGACAATGTTGATGG
1 CACCATAAGAACAGATCCATCACTCTCGGATCTGCTAAAGAATTCAATTTTGACAACGTTCATGG
* ** * *
10396 ATGTGTGGAAATCGAGACAGCG-A-CATCATCTGAAGCTGCAGCGGAATCTCTACGGAATG-AAG
66 ATGTGTGGAAATCGAGACAG-GAAGCCT-ATCCAAAGCCGCAGCAGAATCTCTACGGAATGCAA-
* * * * **
10458 CAGCAAGACGGAAAGAAGAAAACGCTACTAAGTTGGTGGAAACTTATGAATGTTGTGTTGGTGAA
128 CAGCAAAACAGAAAGAAGAAAACGCTACCAAGTTGGTGGAAACTTATGAATGTCGAATTGGTGAA
* * * * * *
10523 ATATACATTGAAAGAACAG-AAAGACTTCCAGCTGATACCGAAGGCAGACCACATCACCATAAGA
193 ACATACATCGAAAGAACAGAAAAAAC-TCCAGCTAATACAGAAGGCAGACCACAGCACCATAAGA
* *
10587 ACCGATCCATCACTCTTGGGTCATCTAAAGATTTCAATTTTGACA-ATGTTGATGAATGTGTGGA
257 ACCGATCCATCACTCTCGGGTCATCTAAAGATTTCAATTTTGA-ATATGTTGATGAATGTGTAGA
* * *
10651 AA-TCGAGACATCGACACTGTATGAAGCTGCAGCAGAATCTCTACGGAATGAAA-CAGCAAGACA
321 AACT-GAGACAGCGACACTCTATGAAGCTGCAGCAGAATCTCTACGGAAT-AAAGCAGAAAGACA
* *
10714 GAAAGAAGAAAACGCTACTAAGTTGGTGGAAA
384 GAAAGAAGAAAACGCTACAAAGATGGTGGAAA
10746 CTTACGAATG
Statistics
Matches: 357, Mismatches: 51, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
467 10 0.03
468 342 0.96
469 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (468 bp):
CACCATAAGAACAGATCCATCACTCTCGGATCTGCTAAAGAATTCAATTTTGACAACGTTCATGG
ATGTGTGGAAATCGAGACAGGAAGCCTATCCAAAGCCGCAGCAGAATCTCTACGGAATGCAACAG
CAAAACAGAAAGAAGAAAACGCTACCAAGTTGGTGGAAACTTATGAATGTCGAATTGGTGAAACA
TACATCGAAAGAACAGAAAAAACTCCAGCTAATACAGAAGGCAGACCACAGCACCATAAGAACCG
ATCCATCACTCTCGGGTCATCTAAAGATTTCAATTTTGAATATGTTGATGAATGTGTAGAAACTG
AGACAGCGACACTCTATGAAGCTGCAGCAGAATCTCTACGGAATAAAGCAGAAAGACAGAAAGAA
GAAAACGCTACAAAGATGGTGGAAATGTTCATTGAAAGACCAGAAATACCTCAAGCTGATACGGA
AGGCAGACCACAG
Found at i:11590 original size:22 final size:22
Alignment explanation
Indices: 11565--11614 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
11555 AAAATGATAG
11565 AATGAAGTTGAAGTGTATTGTA
1 AATGAAGTTGAAGTGTATTGTA
11587 AATGAAGTTGAAGTGTATTGTA
1 AATGAAGTTGAAGTGTATTGTA
11609 AATGAA
1 AATGAA
11615 AGAAGTGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (22 bp):
AATGAAGTTGAAGTGTATTGTA
Found at i:12098 original size:25 final size:24
Alignment explanation
Indices: 12070--12124 Score: 87
Period size: 22 Copynumber: 2.3 Consensus size: 24
12060 GTTCAAAGTT
12070 GGATGAATATTCTAGATCATTTTGG
1 GGATGAATA-TCTAGATCATTTTGG
12095 GGATG-A-ATCTAGATCATTTTGG
1 GGATGAATATCTAGATCATTTTGG
12117 GGATGAAT
1 GGATGAAT
12125 CTAGATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 20 0.71
23 2 0.07
24 1 0.04
25 5 0.18
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.36
Consensus pattern (24 bp):
GGATGAATATCTAGATCATTTTGG
Found at i:12108 original size:22 final size:22
Alignment explanation
Indices: 12080--12135 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
12070 GGATGAATAT
12080 TCTAGATCATTTTGGGGATGAA
1 TCTAGATCATTTTGGGGATGAA
12102 TCTAGATCATTTTGGGGATGAA
1 TCTAGATCATTTTGGGGATGAA
*
12124 TCTAGATAATTT
1 TCTAGATCATTT
12136 GAAGCTGAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (22 bp):
TCTAGATCATTTTGGGGATGAA
Found at i:12934 original size:18 final size:18
Alignment explanation
Indices: 12879--12946 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 18
12869 TAAGAGTTAG
*
12879 TTAATTAAATGAACTGCT
1 TTAATTAAATGAACTACT
* *
12897 TTGA-TGAATGAACTACT
1 TTAATTAAATGAACTACT
12914 TTAATT-AATGAACTAACT
1 TTAATTAAATGAACT-ACT
*
12932 TT-ATTCAATGAACTA
1 TTAATTAAATGAACTA
12947 GATGCATGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 26 0.60
18 17 0.40
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (18 bp):
TTAATTAAATGAACTACT
Found at i:15983 original size:13 final size:13
Alignment explanation
Indices: 15965--16001 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
15955 CACTCTCATC
*
15965 TTCTTTTTTGAAT
1 TTCTTTTTTCAAT
15978 TTC-TTTTTCAAT
1 TTCTTTTTTCAAT
15990 TTC-TTTTTCAAT
1 TTCTTTTTTCAAT
16002 GTCACTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 20 0.87
13 3 0.13
ACGTcount: A:0.16, C:0.14, G:0.03, T:0.68
Consensus pattern (13 bp):
TTCTTTTTTCAAT
Found at i:15990 original size:12 final size:12
Alignment explanation
Indices: 15969--16001 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
15959 CTCATCTTCT
*
15969 TTTTTGAATTTC
1 TTTTTCAATTTC
15981 TTTTTCAATTTC
1 TTTTTCAATTTC
15993 TTTTTCAAT
1 TTTTTCAAT
16002 GTCACTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.67
Consensus pattern (12 bp):
TTTTTCAATTTC
Found at i:18470 original size:17 final size:17
Alignment explanation
Indices: 18448--18519 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
18438 AATTAAGAGT
18448 TAGTTT-ATTAAATGAAC
1 TAGTTTAATT-AATGAAC
* *
18465 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
*
18482 TACTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
18499 TAACTTT-ATTCAATGAAC
1 T-AGTTTAATT-AATGAAC
18517 TAG
1 TAG
18520 ATCCATGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
17 32 0.68
18 15 0.32
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:18506 original size:18 final size:18
Alignment explanation
Indices: 18475--18518 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
18465 TAGTTTGATG
18475 AATGAACT-ACTTTAATT-
1 AATGAACTAACTTT-ATTC
18492 AATGAACTAACTTTATTC
1 AATGAACTAACTTTATTC
18510 AATGAACTA
1 AATGAACTA
18519 GATCCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTATTC
Found at i:20384 original size:16 final size:16
Alignment explanation
Indices: 20363--20403 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
20353 TGATGTTCAT
20363 TAGTGCTCATCGTTAG
1 TAGTGCTCATCGTTAG
20379 TAGTGCTCATCGTTAG
1 TAGTGCTCATCGTTAG
*
20395 TGGTGCTCA
1 TAGTGCTCA
20404 ACGGTACTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.37
Consensus pattern (16 bp):
TAGTGCTCATCGTTAG
Found at i:21570 original size:9 final size:9
Alignment explanation
Indices: 21556--21590 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
21546 CCATTATTAT
21556 TTATTTTTA
1 TTATTTTTA
21565 TTA-TTTTA
1 TTATTTTTA
21573 TTATTTTTA
1 TTATTTTTA
*
21582 CTATTTTTA
1 TTATTTTTA
21591 AACCCCTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATTTTTA
Found at i:21576 original size:17 final size:17
Alignment explanation
Indices: 21556--21588 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21546 CCATTATTAT
*
21556 TTATTTTTATTATTTTA
1 TTATTTTTACTATTTTA
21573 TTATTTTTACTATTTT
1 TTATTTTTACTATTTT
21589 TAAACCCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTTACTATTTTA
Found at i:33751 original size:7 final size:7
Alignment explanation
Indices: 33739--33769 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
33729 GTCAAAGAAA
33739 GTCAACG
1 GTCAACG
33746 GTCAACG
1 GTCAACG
33753 GTCAACG
1 GTCAACG
33760 GTCAACG
1 GTCAACG
33767 GTC
1 GTC
33770 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:33776 original size:5 final size:5
Alignment explanation
Indices: 33766--33821 Score: 58
Period size: 5 Copynumber: 10.4 Consensus size: 5
33756 AACGGTCAAC
* *
33766 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
33815 GGTCG GG
1 GGTCG GG
33822 CCTGACGGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 35 0.81
7 8 0.19
ACGTcount: A:0.07, C:0.21, G:0.54, T:0.18
Consensus pattern (5 bp):
GGTCG
Found at i:33787 original size:22 final size:22
Alignment explanation
Indices: 33759--33821 Score: 126
Period size: 22 Copynumber: 2.9 Consensus size: 22
33749 AACGGTCAAC
33759 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
33781 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
33803 GGTCAACGGTCGGGTCGGG
1 GGTCAACGGTCGGGTCGGG
33822 CCTGACGGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.10, C:0.22, G:0.51, T:0.17
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:33849 original size:10 final size:10
Alignment explanation
Indices: 33830--33918 Score: 96
Period size: 10 Copynumber: 9.1 Consensus size: 10
33820 GGCCTGACGG
33830 TCAAACCGGT
1 TCAAACCGGT
*
33840 TCAGACCGG-
1 TCAAACCGGT
33849 TCAAACCGGT
1 TCAAACCGGT
*
33859 TCGAACCGGT
1 TCAAACCGGT
*
33869 TGAAACCGG-
1 TCAAACCGGT
33878 TCAAACCGG-
1 TCAAACCGGT
33887 TCAGAACCGGT
1 TCA-AACCGGT
*
33898 TGAAAACCGGT
1 T-CAAACCGGT
33909 T-AAACCGGT
1 TCAAACCGGT
33918 T
1 T
33919 TCCAGCAGCC
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
9 28 0.41
10 30 0.44
11 9 0.13
12 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:33851 original size:19 final size:19
Alignment explanation
Indices: 33827--33918 Score: 105
Period size: 19 Copynumber: 4.7 Consensus size: 19
33817 TCGGGCCTGA
*
33827 CGGTCAAACCGGTTCAGAC
1 CGGTCAAACCGGTTCAAAC
*
33846 CGGTCAAACCGGTTCGAAC
1 CGGTCAAACCGGTTCAAAC
*
33865 CGGTTGAAACCGG-TCAAAC
1 CGG-TCAAACCGGTTCAAAC
*
33884 CGGTCAGAACCGGTTGAAAAC
1 CGGTCA-AACCGGTT-CAAAC
*
33905 CGGTTAAACCGGTT
1 CGGTCAAACCGGTT
33919 TCCAGCAGCC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.03
19 34 0.55
20 17 0.27
21 9 0.15
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.17
Consensus pattern (19 bp):
CGGTCAAACCGGTTCAAAC
Found at i:33865 original size:29 final size:30
Alignment explanation
Indices: 33833--33918 Score: 113
Period size: 29 Copynumber: 2.9 Consensus size: 30
33823 CTGACGGTCA
* *
33833 AACCGGTTCAGACCGGTCAAACCGGTTC-G
1 AACCGGTTAAAACCGGTCAAACCGGTTCAG
*
33862 AACCGGTTGAAACCGGTCAAACCGG-TCAG
1 AACCGGTTAAAACCGGTCAAACCGGTTCAG
*
33891 AACCGGTTGAAAACCGGTTAAACCGGTT
1 AACCGGTT-AAAACCGGTCAAACCGGTT
33919 TCCAGCAGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.04
29 32 0.64
30 15 0.30
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (30 bp):
AACCGGTTAAAACCGGTCAAACCGGTTCAG
Found at i:41081 original size:7 final size:7
Alignment explanation
Indices: 41069--41099 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
41059 GTCAAAGAAA
41069 GTCAACG
1 GTCAACG
41076 GTCAACG
1 GTCAACG
41083 GTCAACG
1 GTCAACG
41090 GTCAACG
1 GTCAACG
41097 GTC
1 GTC
41100 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:41106 original size:5 final size:5
Alignment explanation
Indices: 41096--41151 Score: 58
Period size: 5 Copynumber: 10.4 Consensus size: 5
41086 AACGGTCAAC
* *
41096 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
41145 GGTCG GG
1 GGTCG GG
41152 CCTGACCGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 35 0.81
7 8 0.19
ACGTcount: A:0.07, C:0.21, G:0.54, T:0.18
Consensus pattern (5 bp):
GGTCG
Found at i:41117 original size:22 final size:22
Alignment explanation
Indices: 41089--41151 Score: 126
Period size: 22 Copynumber: 2.9 Consensus size: 22
41079 AACGGTCAAC
41089 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
41111 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
41133 GGTCAACGGTCGGGTCGGG
1 GGTCAACGGTCGGGTCGGG
41152 CCTGACCGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.10, C:0.22, G:0.51, T:0.17
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:41177 original size:19 final size:19
Alignment explanation
Indices: 41155--41268 Score: 133
Period size: 19 Copynumber: 5.9 Consensus size: 19
41145 GGTCGGGCCT
41155 GACCGGTCAAACCGGTTCA
1 GACCGGTCAAACCGGTTCA
41174 GACCGGTCAAACCGGTTCA
1 GACCGGTCAAACCGGTTCA
41193 GACCGGTCAAACCGGTTC-
1 GACCGGTCAAACCGGTTCA
*
41211 GAACCGGTTGAAACCGG-TCA
1 G-ACCGG-TCAAACCGGTTCA
* *
41231 AACCGGTCAGAACCGGTTGAA
1 GACCGGTCA-AACCGGTT-CA
* *
41252 AACCGGTTAAACCGGTT
1 GACCGGTCAAACCGGTT
41269 TCCAGCAGCC
Statistics
Matches: 84, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
18 3 0.04
19 55 0.65
20 17 0.20
21 9 0.11
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (19 bp):
GACCGGTCAAACCGGTTCA
Found at i:41180 original size:10 final size:9
Alignment explanation
Indices: 41156--41267 Score: 107
Period size: 9 Copynumber: 11.7 Consensus size: 9
41146 GTCGGGCCTG
41156 ACCGGTCAA
1 ACCGGTCAA
*
41165 ACCGGTTCAG
1 ACCGG-TCAA
41175 ACCGGTCAA
1 ACCGGTCAA
*
41184 ACCGGTTCAG
1 ACCGG-TCAA
41194 ACCGGTCAA
1 ACCGGTCAA
*
41203 ACCGGTTCGA
1 ACCGG-TCAA
*
41213 ACCGGTTGAA
1 ACCGG-TCAA
41223 ACCGGTCAA
1 ACCGGTCAA
41232 ACCGGTCAGA
1 ACCGGTCA-A
*
41242 ACCGGTTGAAA
1 ACCGG-T-CAA
*
41253 ACCGGTTAA
1 ACCGGTCAA
41262 ACCGGT
1 ACCGGT
41268 TTCCAGCAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
9 40 0.46
10 39 0.45
11 7 0.08
12 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:41248 original size:29 final size:29
Alignment explanation
Indices: 41163--41267 Score: 133
Period size: 29 Copynumber: 3.6 Consensus size: 29
41153 CTGACCGGTC
* *
41163 AAACCGGTTCAGACCGGTCA-AACCGGTTC
1 AAACCGG-TCAAACCGGTCAGAACCGGTTG
*
41192 AGACCGGTCAAACCGGTTC-GAACCGGTTG
1 AAACCGGTCAAACCGG-TCAGAACCGGTTG
41221 AAACCGGTCAAACCGGTCAGAACCGGTTG
1 AAACCGGTCAAACCGGTCAGAACCGGTTG
*
41250 AAAACCGGTTAAACCGGT
1 -AAACCGGTCAAACCGGT
41268 TTCCAGCAGC
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.15
29 41 0.61
30 16 0.24
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.16
Consensus pattern (29 bp):
AAACCGGTCAAACCGGTCAGAACCGGTTG
Found at i:47821 original size:55 final size:55
Alignment explanation
Indices: 47749--48073 Score: 454
Period size: 55 Copynumber: 5.9 Consensus size: 55
47739 CTATTCAGAC
** *
47749 ATTCATCAACTCGTGATGAATTCCGTGAATATGCACA-TGAAGTGCCTGTACGGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACT-AAGTGCCTGTACGGTG
* **
47804 ATTCATCAACTTATGATGAATTCCGTAATTATGCACACTAAGTGCCTGTACGACG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACTAAGTGCCTGTACGGTG
* *
47859 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACTAAGTGCTTGTACAGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACTAAGTGCCTGTACGGTG
* * * * * *
47914 ATTCATTAACTTATGATGGATTTCGTGCTTATGCACACTAAGTGCCTGTGCAGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACTAAGTGCCTGTACGGTG
* * *
47969 ATTCATCAACTTATGATGAAATCCATGATTATGTACACTAAGTGCCTGTACGGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACTAAGTGCCTGTACGGTG
* * *
48024 ATTCATCAACTTATGATCAATTCTGAGATTATGCACACTAAGTGCCTGTA
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACTAAGTGCCTGTA
48074 GTACACATAG
Statistics
Matches: 237, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
55 236 1.00
56 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (55 bp):
ATTCATCAACTTATGATGAATTCCGTGATTATGCACACTAAGTGCCTGTACGGTG
Found at i:48527 original size:73 final size:74
Alignment explanation
Indices: 48441--48603 Score: 202
Period size: 73 Copynumber: 2.2 Consensus size: 74
48431 GATACTTCTA
* ** *
48441 TACTATGGTACCGATAATCCATTTAGGTATCGATACCAAAAATAGGTTCGATGTTTCCAGATATC
1 TACTATGGTACCGATAACCCATACAGGTATCGATACCAAAAATAGATTCGATGTTTCCAGATATC
48506 GATA-CCCT
66 GATACCCCT
* * * * * * *
48514 TACTATGGTACCGATACCCCATACCGGTATTGATACTAAAATTAGATTCGATGTTTCTAGGTATC
1 TACTATGGTACCGATAACCCATACAGGTATCGATACCAAAAATAGATTCGATGTTTCCAGATATC
48579 GATACCCCT
66 GATACCCCT
* *
48588 TATTATGGTAACGATA
1 TACTATGGTACCGATA
48604 CTACCTCATA
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
73 58 0.76
74 18 0.24
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (74 bp):
TACTATGGTACCGATAACCCATACAGGTATCGATACCAAAAATAGATTCGATGTTTCCAGATATC
GATACCCCT
Found at i:54114 original size:40 final size:40
Alignment explanation
Indices: 54069--54155 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
54059 GTAAGGAGAG
54069 ACATCTTTTATATACATTATATACCTTATCAGTAACCTTA
1 ACATCTTTTATATACATTATATACCTTATCAGTAACCTTA
* *
54109 ACATCTTTTATATACATTCTATACCTTATCAGTAACCTTG
1 ACATCTTTTATATACATTATATACCTTATCAGTAACCTTA
54149 ACATCTT
1 ACATCTT
54156 AGTGGCATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (40 bp):
ACATCTTTTATATACATTATATACCTTATCAGTAACCTTA
Found at i:55250 original size:81 final size:81
Alignment explanation
Indices: 55152--55314 Score: 222
Period size: 81 Copynumber: 2.0 Consensus size: 81
55142 AAATGAACCA
* * * * *
55152 AACTAGGCTATTATTCTTTTACTTAACGGTACTTAACCGTTTATCTAAT-TGGCATAATTGACAT
1 AACTAGGCTATTATTCTTTTACTCAACGATACGTAACCATTCATCT-ATCTGGCATAATTGACA-
*
55216 C-TTTCTGTCAAATACAC
64 CATTTATGTCAAATACAC
*
55233 AACTAGGCTATTATTCTTTTACTCAACGATACGTAACCATTCATCTATCTGGCATAATTGTCACA
1 AACTAGGCTATTATTCTTTTACTCAACGATACGTAACCATTCATCTATCTGGCATAATTGACACA
*
55298 TTTATGTCAAATGCAC
66 TTTATGTCAAATACAC
55314 A
1 A
55315 GTTAGGATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
80 3 0.04
81 69 0.96
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (81 bp):
AACTAGGCTATTATTCTTTTACTCAACGATACGTAACCATTCATCTATCTGGCATAATTGACACA
TTTATGTCAAATACAC
Found at i:55398 original size:59 final size:59
Alignment explanation
Indices: 55330--56039 Score: 963
Period size: 59 Copynumber: 12.0 Consensus size: 59
55320 GATTCAAAGG
* * * * *
55330 CACTTAGTATGAATTCCTTCTGATGTTAGCACACGAAATGCCCTGTATAGAAATTCAAA
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
** * * *
55389 CACTTAGTATGAATTTTTTCTCAAGTTAGCACATGAAGTGCCCTATACGGAAATTCATA
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* * * * *
55448 CACTTAGTATGAATCCCTTCTCTTGTTAGCACACGATGTGCCCTATGTGGAAGTTCATA
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* * * *
55507 AACTTAGTATGAATTCCTTCTCATGTTAGCACAGGAAGTGCCCTATATGGAAATTTATG
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* * * *
55566 CACTTAGTATGAATTCTTTCTCATGTTTGCACACAAAGTGCCCTATATGGAAATTCATG
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* *
55625 CGCTTAGTATGAATTTCC-TCTCATGTTAGCACACGAAGTGCCCTATATGGAAAGTCATA
1 CACTTAGTATGAA-TTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* * *
55684 CACTTAGTATGAATTTCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAGTTCGTA
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* * * *
55743 CACTTAGTATGAATTCTTTCTCATGTTATCACATGAAGTTCCCTATATGGAAATTCATA
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* ** * * *
55802 CATTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGCACCCTCTATGTACATTCATA
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* *
55861 CACATAGTATGAATTCCTTCTCATTTTAGCACACGAAGTGCCCTATATGGAAATTCATA
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* * * *
55920 CACTTAGTATGAATTCCTTCTGATGTTAGCACACGAAATTCCCTATATGGAAATTCAAA
1 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
** *
55979 CACTTAGTATGAATTTTTTTTCTCATGTTAGCACATGAAGTGCCCTATATGGAAATTCATA
1 CACTTAGTATGAA--TTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
56040 TTGTTAGCAC
Statistics
Matches: 564, Mismatches: 83, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
58 3 0.01
59 519 0.92
60 3 0.01
61 39 0.07
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (59 bp):
CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
Found at i:56056 original size:37 final size:37
Alignment explanation
Indices: 56004--56076 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
55994 TTTTTTCTCA
*
56004 TGTTAGCACATGAAGTGCCCTATATGGAAATTCATAT
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATAT
* *
56041 TGTTAGCACACGAAGTGCCCTATGTGGAAGTTCATA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
56077 CACTTAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (37 bp):
TGTTAGCACACGAAGTGCCCTATATGGAAATTCATAT
Found at i:56137 original size:59 final size:59
Alignment explanation
Indices: 56041--56579 Score: 758
Period size: 59 Copynumber: 9.1 Consensus size: 59
56031 AAATTCATAT
* *
56041 TGTTAGCACACGAAGTGCCCTATGTGGAAGTTCATACACTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* *
56100 TGTTAGCACAGGAAGTGCCCTATATGGAAATTTATACACTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* *
56159 TGTTAGCACACAAAGTGCACTATATGGAAATTCATACACTTAGTATGAATTTCC-TCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAA-TTCCTTCTCA
* * * *
56218 TGTTAGCACACAAAGTGCCCTATATGTAAAGTCATACACTTAGTATGAATTCCTTCTAA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * *
56277 TTTTAGCACACGAAGTGCCCTATATGGAAGTTCGTACACTTAGTATGAATTCTTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * *
56336 TGTTATCACATGAAGTTCCCTATATGGAAATTCATACATTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* ** * * * *
56395 TGTTAGCACACAAAGAACCCTCTATGTAAATTCATACACATAGTATGGATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
*
56454 T-TTCAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTGA
1 TGTT-AGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * * **
56513 TGTTAGCACACGAAATTCCCTATATGGAAATTCAAACACTTATTATGAATTTTTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
56572 TGTTAGCA
1 TGTTAGCA
56580 TAAGAAGTTC
Statistics
Matches: 423, Mismatches: 53, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
58 6 0.01
59 411 0.97
60 6 0.01
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (59 bp):
TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
Found at i:56200 original size:216 final size:214
Alignment explanation
Indices: 55855--56253 Score: 638
Period size: 216 Copynumber: 1.9 Consensus size: 214
55845 TCTATGTACA
*
55855 TTCATACACATAGTATGAATTCCTTCTCATTTTAGCACACGAAGTGCCCTATATGGAAATTCATA
1 TTCATACACATAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
* * *
55920 CACTTAGTATGAATTCCTTCTGATGTTAGCACACGAAATTCCCTATATGGAAATTCAAACACTTA
66 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAATGCACTATATGGAAATTCAAACACTTA
** ** *
55985 GTATGAATTTTTTTTCTCATGTTAGCACATGAAGTGCCCTATATGGAAATTCATATTGTTAGCAC
131 GTATGAA--TTTCCTCTCATGTTAGCACACAAAGTGCCCTATATGGAAAGTCATATTGTTAGCAC
56050 ACGAAGTGCCCTATGTGGAAG
194 ACGAAGTGCCCTATGTGGAAG
* * *
56071 TTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACAGGAAGTGCCCTATATGGAAATTTATA
1 TTCATACACATAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
*
56136 CACTTAGTATGAATTCCTTCTCATGTTAGCACAC-AAAGTGCACTATATGGAAATTCATACACTT
66 CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAA-TGCACTATATGGAAATTCAAACACTT
*
56200 AGTATGAATTTCCTCTCATGTTAGCACACAAAGTGCCCTATATGTAAAGTCATA
130 AGTATGAATTTCCTCTCATGTTAGCACACAAAGTGCCCTATATGGAAAGTCATA
56254 CACTTAGTAT
Statistics
Matches: 168, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
214 40 0.24
215 3 0.02
216 125 0.74
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (214 bp):
TTCATACACATAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAATGCACTATATGGAAATTCAAACACTTA
GTATGAATTTCCTCTCATGTTAGCACACAAAGTGCCCTATATGGAAAGTCATATTGTTAGCACAC
GAAGTGCCCTATGTGGAAG
Found at i:58341 original size:20 final size:20
Alignment explanation
Indices: 58318--58360 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
58308 AATCCACCAT
*
58318 ATGCAACTAAATGCTTCTAA
1 ATGCAACTAAATGATTCTAA
* *
58338 ATGCATCTATATGATTCTAA
1 ATGCAACTAAATGATTCTAA
58358 ATG
1 ATG
58361 GTATTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGCAACTAAATGATTCTAA
Found at i:67377 original size:59 final size:59
Alignment explanation
Indices: 67275--68592 Score: 1866
Period size: 59 Copynumber: 22.3 Consensus size: 59
67265 TTATCATGCT
67275 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * *
67334 CTATATGGAAATTCATACACTTAGTATGAATTCGTTCTGATGTTAGCACACGAAATGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* **
67393 CTATATGGAAATTCAAACACTTAGTATGAATTTTTTCTCATGTTAGCACACGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * * * *
67452 TTATATGAAAATTCATACACTTAGTAGGAATCCCTTCTCATGTTAGCACATGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * * *
67511 CTATGTGGAAGTTCATACACTTAGTATGAATTCCTTCTCATGTTAGCATAGGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * * * *
67570 CTATATGGAAATTTATACACTTATTGTGAATTCCTTCTCATGTCAGCACACGAAGTGAC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
*
67629 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATATTAGCACACGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* *
67688 CTGTATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCT
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* *
67747 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTGATGTTAGCACACGAAATGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * ** *
67806 CTGTATGGAAATTCAAACACTTAGTATGAATTTTTTCTCATGTTAGCACATGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * *
67865 CTATATGGAAATTCATACACTTAGTATGAA-TCCATTTTCTTGTTAGCACACGATGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCC-TTCTCATGTTAGCACACGAAGTGCC
* * * * *
67924 CTATGTGGAAGTTCATACACTTAGTATGAATTCCTTCTCATGTTAGGAAAGGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * * * * *
67983 CTGTATGGAAATTTATACACTCAGTAAGAATTCCTTCTCATGTTTGCACACAAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* *
68042 CTATATGGAAATTCATACACTTTGTATGAATTTCC-TCTCATCTTAGCACACGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAA-TTCCTTCTCATGTTAGCACACGAAGTGCC
* *
68101 CTATATGGAAAGTCATACACTTAGTAGGAATTCCTTCTCATGTTAGCACACGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * * * *
68160 CTATATGGAAGTTCATACACTTAGTATGAATTCTTTCTCATGTTATCACATGAAGTTCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* **
68219 CTATATGGAAATTCATACATTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGCACC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * * *
68278 CTCTATGTAAATTCATACACATAGTATGAATTCCTTCTCATGTTAGCACATGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* *
68337 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTTATGTTAGCACACGAAATGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * * ** * * * *
68396 CTATATGTAAATTCAAACCACTTATTATGAATTTTTTCTGATGTTAGTAAAAGAAGTGCC
1 CTATATGGAAATTCATA-CACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * *
68456 CTATTTGGAAATTCATACACTTAGTATGAATTCCTTCTGATGTTAGCACACGAAATGCC
1 CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
* * ** *
68515 CCATATGGAAATTCAAACACTTAGTATGAATTTTTTTTCTCATGTTAGCACATGAAGTGCC
1 CTATATGGAAATTCATACACTTAGTATGAA--TTCCTTCTCATGTTAGCACACGAAGTGCC
68576 CTATATGGAAATTCATA
1 CTATATGGAAATTCATA
68593 TTGTTAGCAC
Statistics
Matches: 1103, Mismatches: 149, Indels: 12
0.87 0.12 0.01
Matches are distributed among these distances:
58 5 0.00
59 1004 0.91
60 55 0.05
61 39 0.04
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (59 bp):
CTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCC
Found at i:68609 original size:37 final size:37
Alignment explanation
Indices: 68557--68629 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
68547 TTTTTTCTCA
*
68557 TGTTAGCACATGAAGTGCCCTATATGGAAATTCATAT
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATAT
* *
68594 TGTTAGCACACGAAGTGCCCTATGTGGAAGTTCATA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATA
68630 CACTTAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (37 bp):
TGTTAGCACACGAAGTGCCCTATATGGAAATTCATAT
Found at i:68690 original size:59 final size:59
Alignment explanation
Indices: 68594--70436 Score: 2600
Period size: 59 Copynumber: 31.3 Consensus size: 59
68584 AAATTCATAT
* * *
68594 TGTTAGCACACGAAGTGCCCTATGTGGAAGTTCATACACTTAGTATGAATTCCATCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * *
68653 TGTTAGCACAGGAAGTTCCCTTTATGGAAATTTATACACTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
*
68712 TGTTAGCACACAAAGT-CCACTATATGGAAATTCATACACTTAGTATGAATTTCC-TCTCA
1 TGTTAGCACACGAAGTGCC-CTATATGGAAATTCATACACTTAGTATGAA-TTCCTTCTCA
* * *
68771 TGTTAGCACACAAAGTGCCCTATATGTAAAGTCATACACTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * *
68830 TGGTAGCACACGAAGTGCCCTATATGGAAGTTCATACACTTAGTATGAATTCTTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * * *
68889 TGTTATCACATGAAGTTCCCTATATGGAAATTCATATATTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * * * *
68948 TGTTAGCACACGAAGTACCCTCTATGTAAATTTATACACATAGTATGAATTCCTTCTGA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * * **
69007 TGTTAGCACACGAAATGCCCTATATGAAAATTCAAACACTTATTATGAATTTTTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
** * * * * *
69066 TGTTAGCACAATAAGTGCTCTGTCTGGAAATTCATACACTTAGTATTAATTCCTTCTGA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* *
69125 TGTTAGCACACGAAGTGCCCTATATGGAAATGCATACACTTAGTATGAATTCCTTCTGA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * * **
69184 TGTTAGCACACGAAATGCCCTCTATGGAAATTCAAACACTTATTATGAATTTTTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * *
69243 TGTTAGCACACGAAGTGCCTTATATGAAAATTCATACACTTAGTATGAATCCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * * * *
69302 TGTTAGCAGACGAAGTACCCTATGTGGAAGTTCATACATTTAGTATGAATTCCTTTTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* *
69361 TGTTAGCACAGGAAGTGCCCTATATGGAAATTTATACACTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
*
69420 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTTCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * *
69479 TATTAGCACACGAAGTGCCCTATATGGAAATTCATACAGTTAGAATGAAATCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * *
69538 TGTTAGCACACGAAGTGCCCTAT-TGGAAGTTGATACACTTAGTATGAATTCCTTCTGA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * **
69596 TGTTAGCACACGAAATGCCCTATATGGAAATTCAAACACTTATTATGAATTTTTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* *
69655 TGTTAGCACAAGAAGTGCTCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
** * *
69714 TGTTAGCACATAAAGTGCCCTTTATGGAAATTCATACACTTAGTATGAATTCCTTCTGA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * * *
69773 TGTTAGCACACGAAATGCTCTATATGGAAATTCAAACACTTATTATGAACTT-TTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAA-TTCCTTCTCA
* * * *
69832 TGTTCGCACACGAAGT-CCCATATACGAAAATTCATACACTTAGTGTGAATT-CTTCTCA
1 TGTTAGCACACGAAGTGCCC-TATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * * *
69890 TGTTAGCACACAAAGTGCCCTATGTGGAAGTTCATACACTTAGTACGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * ** * *
69949 TTTTAGCACACAAAGTGCCCTATATAAAAATTCATACACTTAGTTTGAATTCCTTCTGA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * **
70008 TGTTAGCACACGAAATGCCCTATATGGAAATTCAAACACTTAGTATGAATTTTTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* *
70067 TGTTAGCACAGGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATACCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* * *
70126 TGTTAGCACACGAAGTACCCTATGTGGAAGTTCATACACTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* *
70185 TGTTAGCACAGGAAGTGCCCTATATGGAAATTTATACACTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
*
70244 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTTCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
*
70303 TATTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* *
70362 TGTTAGCACACGAAGTGCCCTATATGGAAGTTCATACACTTAGTATGAATTCTTTCTCA
1 TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
* *
70421 TGTTATCACATGAAGT
1 TGTTAGCACACGAAGT
70437 TCATACGCTT
Statistics
Matches: 1568, Mismatches: 207, Indels: 18
0.87 0.12 0.01
Matches are distributed among these distances:
58 106 0.07
59 1454 0.93
60 8 0.01
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (59 bp):
TGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCCTTCTCA
Found at i:68753 original size:216 final size:215
Alignment explanation
Indices: 68377--68806 Score: 571
Period size: 216 Copynumber: 2.0 Consensus size: 215
68367 TTCCTTCTTA
* * *** *
68377 TGTTAGCACACGAAATGCCCTATATGTAAATTCAAACCACTTATTATGAATTTTTTCTGATGTTA
1 TGTTAGCACACGAAATGCCCTATATGGAAATTCAAACCACTTAGTATGAATTCCATCTCATGTTA
* *
68442 GTAAAAGAAGTGCCCTATTTGGAAATTCATACACTTAGTATGAATTCCTTCTGATGTTAGCACAC
66 GCAAAAGAAGTGCCCTATTTGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACAC
** **
68507 GAAATGCCCCATATGGAAATTCAAACACTTAGTATGAATTTTTTTTCTCATGTTAGCACATGAAG
131 GAAATGCCCCATATGGAAATTCAAACACTTAGTATGAA--TTTCCTCTCATGTTAGCACACAAAG
*
68572 TGCCCTATATGGAAATTCATAT
194 TGCCCTATATGGAAAGTCATAT
* * * *
68594 TGTTAGCACACGAAGTGCCCTATGTGGAAGTTCATA-CACTTAGTATGAATTCCATCTCATGTTA
1 TGTTAGCACACGAAATGCCCTATATGGAAATTCAAACCACTTAGTATGAATTCCATCTCATGTTA
* * * *
68658 GCACAGGAAGTTCCCT-TTATGGAAATTTATACACTTAGTATGAATTCCTTCTCATGTTAGCACA
66 GCAAAAGAAGTGCCCTATT-TGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACA
* *
68722 C-AAA-GTCCACTATATGGAAATTCATACACTTAGTATGAATTTCCTCTCATGTTAGCACACAAA
130 CGAAATG-CC-CCATATGGAAATTCAAACACTTAGTATGAATTTCCTCTCATGTTAGCACACAAA
*
68785 GTGCCCTATATGTAAAGTCATA
193 GTGCCCTATATGGAAAGTCATA
68807 CACTTAGTAT
Statistics
Matches: 186, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
214 41 0.22
215 7 0.04
216 107 0.58
217 31 0.17
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (215 bp):
TGTTAGCACACGAAATGCCCTATATGGAAATTCAAACCACTTAGTATGAATTCCATCTCATGTTA
GCAAAAGAAGTGCCCTATTTGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACAC
GAAATGCCCCATATGGAAATTCAAACACTTAGTATGAATTTCCTCTCATGTTAGCACACAAAGTG
CCCTATATGGAAAGTCATAT
Found at i:73495 original size:81 final size:81
Alignment explanation
Indices: 73368--73644 Score: 383
Period size: 81 Copynumber: 3.4 Consensus size: 81
73358 GTCAACTTTA
* * * * * * * * *
73368 TGTCGAATACACAGCTACGCTATTATCCTTCTACTCAACGTTACTTAATCGTTCATCTAGCTGGC
1 TGTCAAATGCACAACTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAGCTGGA
73433 ATAATTGACACATTTC
66 ATAATTGACACATTTC
* * *
73449 TGTCAAATTCACAACTAGGCTATTATTCTTTTAGTCAACGGTACTTAACCATTCATCTAGCTGGA
1 TGTCAAATGCACAACTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAGCTGGA
73514 ATAATTGACACATTTC
66 ATAATTGACACATTTC
* * **
73530 TGTCAAATGCACAACTAGGCTATTATTCTTTTACTCAATGGTACTTAACCGTTCATATAATTGGA
1 TGTCAAATGCACAACTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAGCTGGA
*
73595 ATAATTGACACCTTTC
66 ATAATTGACACATTTC
* *
73611 TGTCAAATGCATAACTAGACTATTATTCTTTTAC
1 TGTCAAATGCACAACTAGGCTATTATTCTTTTAC
73645 ATGGAATAGT
Statistics
Matches: 175, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 175 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (81 bp):
TGTCAAATGCACAACTAGGCTATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAGCTGGA
ATAATTGACACATTTC
Found at i:73601 original size:162 final size:162
Alignment explanation
Indices: 73331--73643 Score: 403
Period size: 162 Copynumber: 1.9 Consensus size: 162
73321 TCAACAATGT
* * * * *
73331 TTAACCATTCCTCTAACTCGCATAATTGTCAACTTTATGTCGAATACACAGCTACGCTATTATCC
1 TTAACCATTCATCTAACTCGAATAATTGACAACTTTATGTCAAATACACAACTACGCTATTATCC
* * * * * *
73396 TTCTACTCAACGTTACTTAATCGTTCATCTAGCTGGCATAATTGACACATTTCTGTCAAATTCAC
66 TTCTACTCAACGGTACTTAACCGTTCATATAACTGGAATAATTGACACATTTCTGTCAAATGCAC
*
73461 AACTAGGCTATTATTCTTTTAGTCAACGGTAC
131 AACTAGACTATTATTCTTTTAGTCAACGGTAC
* * * * * *
73493 TTAACCATTCATCTAGCTGGAATAATTGAC-ACATTTCTGTCAAATGCACAACTAGGCTATTATT
1 TTAACCATTCATCTAACTCGAATAATTGACAAC-TTTATGTCAAATACACAACTACGCTATTATC
* * * *
73557 CTTTTACTCAATGGTACTTAACCGTTCATATAATTGGAATAATTGACACCTTTCTGTCAAATGCA
65 CTTCTACTCAACGGTACTTAACCGTTCATATAACTGGAATAATTGACACATTTCTGTCAAATGCA
*
73622 TAACTAGACTATTATTCTTTTA
130 CAACTAGACTATTATTCTTTTA
73644 CATGGAATAG
Statistics
Matches: 127, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
161 2 0.02
162 125 0.98
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (162 bp):
TTAACCATTCATCTAACTCGAATAATTGACAACTTTATGTCAAATACACAACTACGCTATTATCC
TTCTACTCAACGGTACTTAACCGTTCATATAACTGGAATAATTGACACATTTCTGTCAAATGCAC
AACTAGACTATTATTCTTTTAGTCAACGGTAC
Found at i:74045 original size:59 final size:59
Alignment explanation
Indices: 73982--75038 Score: 1454
Period size: 59 Copynumber: 17.9 Consensus size: 59
73972 TATCCCATAC
* * * * * * *
73982 GGAAATTCATACACTTAGCATGAATTTCTTATAATTTTAGCACAC-AAGGTGCCCCATCT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAA-GTGCCCTATAT
* * * *
74041 GGAAATTCATACACTTAGTATGAATTTCTTATCATTTTACCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* *
74100 GGAAATTCATACACTTCGTATGAATTCCTTCTCATGTTAGCACACAAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * *
74159 AGAAATTCATACACTTAGTATGAATTTCTTCTCATGTTAGCACACGAAGTGCCATATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * *
74218 GGAAATTCATACACTTAGTATGAATTTCTACTCATGTTAGCACACGAAGTTCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * * * *
74277 GAAAATTCATACACTTATTATGAATAT-CTTCTAATATTAGAACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAAT-TCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * *
74336 AGAAATTCATACACTTAATATAAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * * * * *
74395 GGAAGTTCATAAACTTAGCATGAATTCATTCTCATGTTAGCACATGAAGTACCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * **
74454 CGAAATTCATACACTTAGTATGAATTCCTTCACACATTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * * *
74513 GTAAATTCATACGCTTAGTATGAATTTCTTCTCATGTTAGCACACGAATTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* *
74572 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCATACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * * *
74631 GGAAATTTATACACTTGGTATTAATTCCTTCTCATGTTAGCACACGAAGTGCCCTGTAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * * * * * * *
74690 GGAAGTTTATAAACTTAGAATGAATTCCTTTTAATGTTAGGACACGAAGTGTCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
*
74749 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCTCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* * * *
74808 AGAAATTCATACACTTAGTATAAATTCATTCTCATGTTAGCACATGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
* *
74867 GGAAATTCACACACTTAGTATGAATTCCTTC-CATGTTAGCAAACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
*
74925 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGATGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
** ** * *
74984 GGAAATTCATACACTTAGTATGAATTTTTTGACATTTTAGCACACAAAGTGCCCT
1 GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
75039 TTTTGTAATC
Statistics
Matches: 881, Mismatches: 113, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
58 56 0.06
59 822 0.93
60 3 0.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATAT
Found at i:75482 original size:95 final size:95
Alignment explanation
Indices: 75355--75544 Score: 233
Period size: 95 Copynumber: 2.0 Consensus size: 95
75345 CGATACTTCA
* * *
75355 ATACTATGGTATAGATACCCCCTTATGGTATCGATAT-AAAGTTTAGGTTTGAAGTTGCTTAGTA
1 ATACTATGGTATAGATACCCCCTTATGGTATCGAT-TCAAAGTTTAGATTCGAAGTTGCATAGTA
*
75419 TTGATGCCCTTACCATGGTATCAATACTACC
65 TTGATACCCTTACCATGGTATCAATACTACC
* * * * *
75450 ATACTATGGTACT-GATACCCCCTT-TCGGTATCGATTCCAATTTTATATTCGATGTTGCATGGT
1 ATACTATGGTA-TAGATACCCCCTTAT-GGTATCGATTCAAAGTTTAGATTCGAAGTTGCATAGT
* *
75513 ATTGATACCCTTATCATGGTATCGATACTACC
64 ATTGATACCCTTACCATGGTATCAATACTACC
75545 TTGGCGGTAT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
94 2 0.02
95 78 0.96
96 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (95 bp):
ATACTATGGTATAGATACCCCCTTATGGTATCGATTCAAAGTTTAGATTCGAAGTTGCATAGTAT
TGATACCCTTACCATGGTATCAATACTACC
Found at i:76516 original size:42 final size:42
Alignment explanation
Indices: 76412--76526 Score: 176
Period size: 42 Copynumber: 2.7 Consensus size: 42
76402 AGCTATACGA
* *** *
76412 GGTAAGGTTGGTGCATTGAGAAATGCTCTGAGAAGATTACAG
1 GGTAAGGTTGGTGCGTTGAGCTTTGCTCCGAGAAGATTACAG
*
76454 GGTAAGGTTGGTGCGTTGAGCTTTACTCCGAGAAGATTACAG
1 GGTAAGGTTGGTGCGTTGAGCTTTGCTCCGAGAAGATTACAG
76496 GGTAAGGTTGGTGCGTTGAGCTTTGCTCCGA
1 GGTAAGGTTGGTGCGTTGAGCTTTGCTCCGA
76527 ATCATGTGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.23, C:0.13, G:0.35, T:0.29
Consensus pattern (42 bp):
GGTAAGGTTGGTGCGTTGAGCTTTGCTCCGAGAAGATTACAG
Found at i:82671 original size:20 final size:20
Alignment explanation
Indices: 82646--82683 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
82636 GAACTCCGAA
82646 TCTTAGGTTCTAAAGTAGAT
1 TCTTAGGTTCTAAAGTAGAT
82666 TCTTAGGTTCTAAAGTAG
1 TCTTAGGTTCTAAAGTAG
82684 GTATATTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (20 bp):
TCTTAGGTTCTAAAGTAGAT
Found at i:84160 original size:16 final size:16
Alignment explanation
Indices: 84135--84166 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84125 TTTAATATCA
*
84135 TAATATTAATTATATT
1 TAATACTAATTATATT
84151 TAATACTAATTATATT
1 TAATACTAATTATATT
84167 AAGAAATTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATACTAATTATATT
Done.